Antigen

Antigen Class

TFs and others

Antigen

Hnf4a

Cell type

Cell type Class

Liver

Cell type

Liver

MeSH Description

A large lobed glandular organ in the abdomen of vertebrates that is responsible for detoxification, metabolism, synthesis and storage of various substances.

Sample

source_name

Liver

Sex

male

genotype

exon swap a7HMZ (P2-HNF4a only)

age

16 to 20 weeks

diet

fed ad libitum (LabDiet, #5001)

strain

mixed 129/Sv plus C57BL/6 background

cell type

Liver

chip antibody

HNF4a (alpha-445)

geo_loc_name

missing

collection_date

missing

Sequenced DNA Library

library_name

GSM7290595

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Fresh tissue was fixed with 1% formaldehyde for 15 minutes. After quenching and cell lysis, chromatin was sonicated using a Sonic Dismembtrator 500 (Fisher Scientific). DNA fragments with 200-500 bps were selected ChIP-seq libraries were prepared using the BIOO Scientific ChIPseq DNA library kit. 2-22 ng of DNA was used as starting material for input and ip samples. Libraries were amplified using a thermocycler. Libraries were validated using ???

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

28568911

Reads aligned (%)

98.3

Duplicates removed (%)

21.8

Number of peaks

58639 (qval < 1E-05)

mm9

Number of total reads

28568911

Reads aligned (%)

98.2

Duplicates removed (%)

21.9

Number of peaks

58669 (qval < 1E-05)